brainfo

> Hi @brainfo, > > TBH, I realize that I should provide a bit more visualisations, so suggestions are welcome. Please feel free to open an issue with your suggestions,...

Hi Luca, I tried https://github.com/brainfo/spatialdata-io/blob/main/src/spatialdata_io/readers/stereoseq.py This works with the "folder structure" from SAW v8; for also a duplicate issue #322 Side note 1: datasets from stormics website are not with...

If for pearson residue it's feasible to store the pearson_residual_df as a layer and other parameter values in uns?

> Can you tell me more about what's your environment and where did you encounter issues? I tried it on a new conda env (in linux) and I also found...

> ok i think we can simplify the dependencies, scanpy is not a dependency unless you need to run the notebooks. externals.neighbors seem to need some update, but it's not...

just to follow up this is not fixed yet could it be marked as a bug?

> [@brainfo](https://github.com/brainfo) thank you for your suggestion! I'll have a proper look soon. Hi, I have two more comments for tool/_milo.py with the workflow when da_nhoods take model_contrasts vector (multiple...

Hi, anyone has exprience in installing apex? They have building https://github.com/NVIDIA/apex: ``` git clone https://github.com/NVIDIA/apex cd apex # if pip >= 23.1 (ref: https://pip.pypa.io/en/stable/news/#v23-1) which supports multiple `--config-settings` with the...